Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,292,944	T→C	intergenic (‑22/‑583)	hns ← / → tdk	global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,292,944	0	T	C	97.1%	238.8 / ‑4.1	69	intergenic (‑22/‑583)	hns/tdk	global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase
Reads supporting (aligned to +/- strand):  ref base T (1/1);  new base C (34/33);  total (35/34)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGTTTCAAGTGTACATTCTCTTGCCTGCGCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTG  >  NC_000913/1292848‑1293036                                                                                                 |                                                                                             cGTTTCAAGTGTACATTCTCTTGCCTGCGCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTgg                                                                                           <  1:598125/100‑1 (MQ=255)   tttCAAGTGTACATGCTCTTGCCTGCTCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTgggg                                                                                         <  1:639554/100‑1 (MQ=255)    ttCAAGTGTACATTCTCTTGCCTGCGCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGggt                                                                                        >  1:1728596/1‑100 (MQ=255)      cAAGTGTACATTCTCTTGCCTGCGCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGggtgg                                                                                      >  1:185581/1‑100 (MQ=255)      cAAGTGTACATTCTCTTGCCTGCGCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTAGCTCATTGTAGTAATCTCAAACTTATACTGGggtgg                                                                                      >  2:962713/1‑100 (MQ=255)        aGTGTACATTCTCTTGCCTGCGCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGtt                                                                                    <  2:6756/100‑1 (MQ=255)           gtACATTCTCTTGCCTGCGCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTttgt                                                                                 <  1:204967/100‑1 (MQ=255)             aCATTCTCTTGCCTGCGCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGGAATCTCAAACTTATACTGGGGTGGTttgttg                                                                               <  2:1166575/100‑1 (MQ=255)              cATTCTCTTGCCTGCGCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGa                                                                              >  2:663957/1‑100 (MQ=255)               aTTCTCTTGCCTGCGCACGAAGAGTACGGATGTTGTTTAGAATTTTAAGTGCTTCGCACATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGa                                                                              <  1:1061023/99‑1 (MQ=255)                ttCTCTTGCCTGCGCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAgg                                                                            <  1:1435971/100‑1 (MQ=255)                    ctTGCCTGCGCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGtaat                                                                        >  1:56909/1‑100 (MQ=255)                        ccTGCGCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAataata                                                                    <  2:1914420/100‑1 (MQ=255)                         cTGCGCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATag                                                                   >  2:1795556/1‑100 (MQ=255)                         cTGCGCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATag                                                                   >  2:703671/1‑100 (MQ=255)                          tGCGCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATaga                                                                  >  1:239333/1‑100 (MQ=255)                             gcACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGcc                                                               <  2:74163/100‑1 (MQ=255)                              cACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCt                                                              >  1:1730103/1‑100 (MQ=255)                                cGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTa                                                            <  1:519820/100‑1 (MQ=255)                                       tACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAg                                                     <  2:1352105/100‑1 (MQ=255)                                       tACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAg                                                     >  2:1194860/1‑100 (MQ=255)                                       tACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAg                                                     <  1:265441/100‑1 (MQ=255)                                       tACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAg                                                     <  1:1870245/100‑1 (MQ=255)                                        aCGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAg                                                     <  2:871509/99‑1 (MQ=255)                                        aCGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGt                                                    <  2:1061652/100‑1 (MQ=255)                                        aCGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGt                                                    <  1:750856/100‑1 (MQ=255)                                        aCGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGt                                                    <  2:509630/100‑1 (MQ=255)                                         cGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGtt                                                   >  2:1886551/1‑100 (MQ=255)                                          ggATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTtg                                                  <  1:1663298/100‑1 (MQ=255)                                            aTGTTGTTCAGAATTTTAAGTGCGTCGTTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATGCAGTtgtg                                                <  1:459374/100‑1 (MQ=255)                                             tgttgtTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGc                                               <  2:17768/100‑1 (MQ=255)                                             tgttgtTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGc                                               <  2:242657/100‑1 (MQ=255)                                             tgttgtTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGc                                               <  1:663956/100‑1 (MQ=255)                                                 gttCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATa                                           >  2:1205841/1‑100 (MQ=255)                                                 gttCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATa                                           >  1:78559/1‑100 (MQ=255)                                                 gttCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATa                                           >  1:968145/1‑100 (MQ=255)                                                 gttCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATa                                           <  2:1160416/100‑1 (MQ=255)                                                 gttCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGCGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATa                                           >  2:225667/1‑100 (MQ=255)                                                   tCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGc                                         >  2:936933/1‑100 (MQ=255)                                                    cAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGcc                                        <  2:1926061/100‑1 (MQ=255)                                                     aGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGcaa                                       >  1:471129/1‑98 (MQ=255)                                                     aGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCa                                       >  2:742870/1‑100 (MQ=255)                                                     aGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCa                                       >  1:213343/1‑100 (MQ=255)                                                      gAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGcc                                        >  1:1480104/1‑98 (MQ=255)                                                      gAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAg                                      <  1:1497340/100‑1 (MQ=255)                                                      gAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGATGTGCAATAGCCAg                                      >  1:1325666/1‑100 (MQ=255)                                                      gAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGCGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAg                                      >  1:710865/1‑100 (MQ=255)                                                           ttAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATg                                 <  1:768595/100‑1 (MQ=255)                                                           ttAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATg                                 <  2:1389251/100‑1 (MQ=255)                                                             aaGTGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTa                               >  1:102355/1‑100 (MQ=255)                                                                tGCTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAgg                            <  2:1741393/100‑1 (MQ=255)                                                                  cTTCGCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGaa                          >  1:961642/1‑100 (MQ=255)                                                                      gCTCATTGTAGTAATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCa                      >  1:901513/1‑100 (MQ=255)                                                                             gtagtaATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGt               >  1:170/1‑100 (MQ=255)                                                                             gtagtaATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGt               <  1:445070/100‑1 (MQ=255)                                                                             gtagtaATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGt               >  2:1527031/1‑100 (MQ=255)                                                                             gtagtaATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGt               <  1:910572/100‑1 (MQ=255)                                                                              tagtaATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGtt              >  2:171588/1‑100 (MQ=255)                                                                               agtaATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTc             <  1:245081/100‑1 (MQ=255)                                                                               agtaATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTc             <  1:1886538/100‑1 (MQ=255)                                                                                 taATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCtt           >  1:784191/1‑100 (MQ=255)                                                                                 taATCTCAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCtt           >  1:474494/1‑100 (MQ=255)                                                                                    tctcAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTAt        >  2:1777152/1‑100 (MQ=255)                                                                                     ctcAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTAtt       <  2:1730114/100‑1 (MQ=255)                                                                                      tcAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTAttt      >  2:162305/1‑100 (MQ=255)                                                                                      tcAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTAttt      >  1:265548/1‑100 (MQ=255)                                                                                      tcAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTAttt      >  2:1868329/1‑100 (MQ=255)                                                                                       cAAACTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTAtttt     >  2:1087619/1‑100 (MQ=255)                                                                                          aCTTATACTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTtgtg  <  1:742869/100‑1 (MQ=255)                                                                                                 |                                                                                             CGTTTCAAGTGTACATTCTCTTGCCTGCGCACGAAGAGTACGGATGTTGTTCAGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTG  >  NC_000913/1292848‑1293036

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑